Run ID: ERR181959
Sample name:
Date: 31-03-2023 15:25:48
Number of reads: 2907567
Percentage reads mapped: 80.42
Strain: lineage4.3.4.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472100 | n.255T>C | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472113 | n.268T>C | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472127 | n.282C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472129 | n.284G>C | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472137 | n.292G>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472151 | n.306C>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472203 | n.358G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472210 | n.365A>C | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472213 | n.368G>C | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472236 | n.391C>G | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472240 | n.395G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472579 | n.734G>A | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.26 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472779 | n.934G>A | non_coding_transcript_exon_variant | 0.24 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472786 | n.941C>T | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.23 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474798 | n.1141C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474804 | n.1147C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474823 | n.1166C>G | non_coding_transcript_exon_variant | 0.19 |
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.2 |
rrl | 1474869 | n.1212G>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474902 | n.1245T>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476280 | n.2623A>C | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476293 | n.2636C>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476294 | n.2637A>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476295 | n.2638C>G | non_coding_transcript_exon_variant | 0.14 |
rrl | 1476296 | n.2639C>T | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476297 | n.2640C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476302 | n.2645G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476311 | n.2654G>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476312 | n.2655T>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.28 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476425 | n.2768G>A | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.3 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.22 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.26 |
PPE35 | 2169866 | c.747G>C | synonymous_variant | 0.28 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 0.98 |
alr | 3840719 | c.702A>G | synonymous_variant | 0.98 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.23 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |